PXD010142

PXD010142 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Update on virtual-experimental 2DE approach in chromosome-centric human proteome project
Description	In the boundaries of chromosome-centric Human Proteome Project c-HPP to obtain information about proteoforms coded by chromosome 18, several cell lines were analyzed. In our study we have been using proteoform separation by 2DE (sectional analysis) and semi-virtual 2DE with following shotgun mass-spectrometry using LC ESI-MS/MS. Previously, we published a first draft of this research, where only HepG2 cells were used. Here, next step was done using liver, glioblastoma, fibroblasts, kidney cells and plasma. Altogether, confident (2 significant sequences minimum) information about proteoforms coded by ~80 genes was obtained. The 3D-graphs showing distribution of different proteoforms from the same gene in 2D map were generated. Additionally, semi-virtual 2DE approach allowed for detecting more proteoforms and estimate their pI more precisely
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:45:35.501.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD010142
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Elena Petrenko
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Ammonia-loss; Glu->pyro-Glu; Oxidation; Acetyl; Carbamidomethyl; Gln->pyro-Glu
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2018-06-15 03:07:01	ID requested
1	2018-09-24 03:25:43	announced
⏵ 2	2024-10-22 04:45:44	announced	2024-10-22: Updated project metadata.

Publication List

Naryzhny SN, Zorina ES, Kopylov AT, Zgoda VG, Kleyst OA, Archakov AI, Next Steps on in Silico 2DE Analyses of Chromosome 18 Proteoforms. J Proteome Res, 17(12):4085-4096(2018) [pubmed]
10.1021/acs.jproteome.8b00386;
10.6019/PXD010142;

Naryzhny SN, Zorina ES, Kopylov AT, Zgoda VG, Kleyst OA, Archakov AI, Next Steps on in Silico 2DE Analyses of Chromosome 18 Proteoforms. J Proteome Res, 17(12):4085-4096(2018) [pubmed]

10.1021/acs.jproteome.8b00386;

10.6019/PXD010142;

Keyword List

ProteomeXchange project tag: Chromosome-centric Human Proteome Project (C-HPP), Human Proteome Project
submitter keyword: ESI LC-MS/MS, inventory, proteoforms, mass spectrometry, Chromosome 18, chromosome-centric, two-dimensional electrophoresis,proteome

ProteomeXchange project tag: Chromosome-centric Human Proteome Project (C-HPP), Human Proteome Project

submitter keyword: ESI LC-MS/MS, inventory, proteoforms, mass spectrometry, Chromosome 18, chromosome-centric, two-dimensional electrophoresis,proteome

Contact List

Stanislav Naryzhny
contact affiliation	Institute of Biomedical Chemistry of Russian Academy of Medical Sciences, Pogodinskaya 10, Moscow, 119121, Russia
contact email	snaryzhny@mail.ru
lab head
Elena Petrenko
contact affiliation	IBMC
contact email	el.petrenko@bk.ru
dataset submitter

Full Dataset Link List

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2018/09/PXD010142
PRIDE project URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2018/09/PXD010142

PRIDE project URI

Repository Record List

[ + ]